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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagcttacctaaatttgtgagctcatgcacaaaatacatatttatcattgccccggcatgccctctctagctaattagtagatatctgcttaaacgtttctttttctggtcctccaaatcaaagtttccagtaaagagccatgcttgcagactgcagtgctgtttctcattctgtgataacttgttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTTCCATACTTCTATTCCCGTTCATTTGATCTGTCTTGGCAATTCTATGGCG

Basic information

species Glycine max
transcript GLYMA0169S00210.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA0169S00210.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G084881_T02 (Zea mays), 3'ss of exon 1
gtaagtagcttacctaaatttgtgagctcatgcacaaaatacatatttatcattgccccggcatgccctctctagctaattagtagatatctgcttaaacgtttctttttctggtcctccaaatcaaagt--ttccagtaaagagccatgcttgcagactgcagtgctgtttc--tcattctgtgataacttgttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTTCCATACTTCTATTCCCGTTCATTTGATCTGTCTTGGCAATTCTATGGCG
                                                                                                        |     |         |||  |  ||  |||   || |  | ||| | |   |  | ||     ||| |  |  |  ||| ||  | | || | |  |||| |||||||     |||   ||   | |||||  ||||||||| ||||| ||||||||||| ||||| ||||| || ||| | ||||||||||| ||||
------------------------------------------------------------------------------------------------------cccccccccccaaaaaaaaaagtagtgtaattcatttatattgtcatccgtttggtatccaaattggttgcgatggtaatgttatggcctcttattt-cagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTGCCATACTTCTACTCCCGATCATTCGACCTGGCGTGGCAATTCTACGGCG

upper sequence: GLYMA0169S00210.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv08s0007g03610.t01 (Vitis vinifera), 3'ss of exon 9
gtaagtagcttacctaaatttgtgagctcatgcacaaaatacatatttatcattgccccggcatgccctctctagctaattagtagatatctgcttaaacgtttctttttctggtcctccaaatcaaagtttccagtaaagagccatgcttgcagactgcagtgctgtttctcattctgtgataacttgttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTTCCATACTTCTATTCCCGTTCATTTGATCTGTCTTGGCAATTCTATGGCG
                                                                                       | | | ||   | | |  ||  |  ||| |||      ||| | | || || | |  |||  ||   || || |    ||  |  | |||||      ||||||| ||| |||| |||||||||  ||||||||| | | |||||||||||||||| ||||||||||||||||| || ||| | ||||||||||| ||||| |||||||| |
-------------------------------------------------------------------------------------ctttttttctgccatgatcattccttaggtgctc------aaaatatacattagatatgcattttta-ggagtgaatcagtgaattac-ttctg-----gcttgttt-atgcagGCAATCAAGGCAAGTGAGGAAGGGAAATCAGTTGAGGAGTATGACTACCTTCCATACTTCTACTCTCGTGCCTTTGATCTGTCCTGGCAGTTCTATGGTG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|209729133|gb|BW660032.1|BW660032
EST:     GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAG                         GCCATCAAAGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
genomic: GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAGgtaagtagct ... ttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
EST: gi|8403523|gb|BE059157.1|BE059157
EST:     GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAG                         GCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
genomic: GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAGgtaagtagct ... ttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
EST: gi|254334402|gb|GR844187.1|GR844187
EST:     GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAG                         GCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
genomic: GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAGgtaagtagct ... ttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
EST: gi|308098764|gb|HO760505.1|HO760505
EST:     GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAG                         GCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
genomic: GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAGgtaagtagct ... ttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
EST: gi|21677606|gb|BQ629957.1|BQ629957
EST:     GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAG                         GCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
genomic: GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAGgtaagtagct ... ttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
EST: gi|18720380|gb|BM523252.1|BM523252
EST:     GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAG                         GCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
genomic: GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAGgtaagtagct ... ttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
EST: gi|151398497|gb|EV268368.1|EV268368
EST:     GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAG                         GCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
genomic: GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAGgtaagtagct ... ttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
EST: gi|26057696|gb|CA800610.1|CA800610
EST:     GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAG                         GCCATCAAAGCAGCTGAGGAAGGAT-AACAGTTGAGGAGTATGATTACCTT
genomic: GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAGgtaagtagct ... ttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
EST: gi|192327038|gb|FK019270.1|FK019270
EST:     GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAG                         GCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
genomic: GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAGgtaagtagct ... ttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
EST: gi|151398847|gb|EV268718.1|EV268718
EST:     GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAG                         GCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
genomic: GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAGgtaagtagct ... ttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
EST: gi|19938647|gb|BQ081820.1|BQ081820
EST:     GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAG                         GCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
genomic: GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAGgtaagtagct ... ttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
EST: gi|23725657|gb|BU760790.1|BU760790
EST:     GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAG                         GCCATCAAAGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
genomic: GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAGgtaagtagct ... ttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
EST: gi|27424500|gb|CA936020.1|CA936020
EST:     GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAG                         GCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT
genomic: GAGTTGAACATGTTGATCATTCTCGCAAATCAGCTGAACAGGCTGTGAAGgtaagtagct ... ttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgcttgcagactgcagtgctgtttctcattctgtgataacttgttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTTCCATACTTCTATTCCCGTTCATTTGATCTGTCTTGGCAATTCTATGGCG
                                   tgataac  putative branch site (score: 2)
                                         cttgtttt  CT-rich tract
                                     ataacttgttttat  TA-rich tract